<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">Hi Hernando,<div class=""><br class=""></div><div class=""> The trick you want is to use “matrixcopy” with the “moving” option to move additional models using the same motion. First matchmaker an extra copy of the atomic model (#5) then move the original copy (#3) and associated density map (#4) to align with it</div><div class=""><br class=""></div><div class=""><span class="Apple-tab-span" style="white-space:pre"> </span>matchmaker #1 #5</div><div class=""> <span class="Apple-tab-span" style="white-space: pre;"> </span>matrixcopy #5 #3 moving #4</div><div class=""><br class=""></div><div class=""><a href="https://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/matrixcopy.html" class="">https://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/matrixcopy.html</a></div><div class=""><br class=""></div><div class=""> Tom</div><div class=""><br class=""></div><div class=""><br class=""></div><div class=""><div><blockquote type="cite" class=""><div class="">On Aug 16, 2017, at 10:54 AM, Elaine Meng wrote:</div><br class="Apple-interchange-newline"><div class=""><div class="">Hi Hernando,<br class="">In our newer software ChimeraX, there is a matchmaker command “bring” option that does exactly what you describe:<br class=""><<a href="http://rbvi.ucsf.edu/chimerax/docs/user/commands/matchmaker.html" class="">http://rbvi.ucsf.edu/chimerax/docs/user/commands/matchmaker.html</a>><br class=""><br class="">However, Chimera does not have this matchmaker option, and things may be more complicated.<br class=""><br class="">If the map and its atomic structure are already in the right relationship with each other when you first open their files, it should work to:<br class=""><br class="">(1) superimpose the atomic structure (let’s call it model #2) onto another atomic structure (#1) <br class=""><br class="">(2) use “matrixcopy” command to apply rotation/translation matrix from structure #2 to map #3:<br class="">matrixcopy #2 #3<br class=""><<a href="http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/matrixcopy.html" class="">http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/matrixcopy.html</a>><br class=""><br class="">However, if the map and its structure weren’t in the right relationship when their files were first opened (if you had to move them separately, e.g. fitting), I don’t think that would work. <br class=""><br class="">The Chimera “match” (but not matchmaker) command does have an “active” option to bring other models that are activated for motion (movable with the mouse) along during the match.<br class=""><<a href="http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/match.html" class="">http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/match.html</a>><br class=""><br class="">I hope this helps,<br class="">Elaine<br class="">-----<br class="">Elaine C. Meng, Ph.D. <br class="">UCSF Chimera(X) team<br class="">Department of Pharmaceutical Chemistry<br class="">University of California, San Francisco<br class=""><br class=""><blockquote type="cite" class="">On Aug 16, 2017, at 6:15 AM, Hernando J Sosa wrote:<br class=""><br class="">Dear Chimera,<br class=""><br class="">Is it possible when using Matchmaker to move an associated density map with it?<br class="">Eg: assuming that atomic model #1 is fitted to density #2 and atomic model #3 is fitted to density #4, is it possible to move/match #3 into #1 moving #4 with it? <br class="">I know it would be possible to achieve something similar doing Matchmaker first and then fit map into map, but I wonder if the above could be done too as it would be simpler and easier when dealing with many maps with already fitted structures.<br class=""><br class="">Thanks<br class="">Hernando<br class=""></blockquote><br class=""><br class="">_______________________________________________<br class="">Chimera-users mailing list: <a href="mailto:Chimera-users@cgl.ucsf.edu" class="">Chimera-users@cgl.ucsf.edu</a><br class="">Manage subscription: <a href="http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users" class="">http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users</a><br class=""><br class=""></div></div></blockquote></div><br class=""></div></body></html>